Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 119 of 141
Found at i:35223449 original size:39 final size:39
Alignment explanation
Indices: 35223338--35223467 Score: 179
Period size: 40 Copynumber: 3.3 Consensus size: 39
35223328 GGACTAAGAT
* * * *
35223338 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGTGAGTTACTAAATCCGGGTTATGTC
*
35223378 CCGAAGGCATTCGTGTGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGTGAGTTACTAAATCCGGGTTATGTC
* *
35223418 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGTGAGTTACTAAATCCGGGTTATGTC
35223457 CCGAAGGCATT
1 CCGAAGGCATT
35223468 TGAACGAGGA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 39 0.48
40 42 0.52
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTGTGTGAGTTACTAAATCCGGGTTATGTC
Found at i:35224904 original size:39 final size:39
Alignment explanation
Indices: 35224850--35225108 Score: 358
Period size: 39 Copynumber: 6.6 Consensus size: 39
35224840 TTCGGGGTGT
*
35224850 TACAATAGGGGCACGTATGTGCAATCAGGGGTACCGAAG
1 TACAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAG
* * * *
35224889 TACAACAGGGGCACGTATGTGTAATCAAGTGTACTGAAG
1 TACAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAG
* *
35224928 TACAAACAAGGGCACGTATGTGCAATCAGGGGTATCGAAG
1 TAC-AACAGGGGCACGTATGTGCAATCAGGGGTACCGAAG
* *
35224968 TACAACAGGGCCACGTATGTGCAATCAGGTGTACCGAAG
1 TACAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAG
* * *
35225007 GACAACAGGGGCACGTACGTGCAATTAGGGGTACCGAAG
1 TACAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAG
35225046 TACAAACAGGGGCACGTATGTGCAATCTA-GGGTACCGAAG
1 TAC-AACAGGGGCACGTATGTGCAATC-AGGGGTACCGAAG
* *
35225086 TACAATACGGGCACGTATGTGCA
1 TACAACAGGGGCACGTATGTGCA
35225109 TTCATATAAT
Statistics
Matches: 192, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 123 0.64
40 68 0.35
41 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.31, T:0.18
Consensus pattern (39 bp):
TACAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAG
Found at i:35224994 original size:79 final size:78
Alignment explanation
Indices: 35224858--35225108 Score: 362
Period size: 79 Copynumber: 3.2 Consensus size: 78
35224848 GTTACAATAG
*
35224858 GGGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGTATGTGTAATCAAGTGTAC
1 GGGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGTATGTGCAATCAAGTGTAC
*
35224923 TGAAGTACAAACAA
66 CGAAGTACAAAC-A
* * *
35224937 GGGCACGTATGTGCAATCAGGGGTATCGAAGTACAACAGGGCCACGTATGTGCAATCAGGTGTAC
1 GGGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGTATGTGCAATCAAGTGTAC
*
35225002 CGAAGGAC-AACA
66 CGAAGTACAAACA
* * * *
35225014 GGGGCACGTACGTGCAATTAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCTAGGGT
1 -GGGCACGTATGTGCAATCAGGGGTACCGAAGTAC-AACAGGGGCACGTATGTGCAATCAAGTGT
35225079 ACCGAAGTACAATAC-
64 ACCGAAGTACAA-ACA
35225094 GGGCACGTATGTGCA
1 GGGCACGTATGTGCA
35225109 TTCATATAAT
Statistics
Matches: 153, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
77 1 0.01
78 34 0.22
79 115 0.75
80 1 0.01
81 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.31, T:0.18
Consensus pattern (78 bp):
GGGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGTATGTGCAATCAAGTGTAC
CGAAGTACAAACA
Found at i:35225059 original size:118 final size:117
Alignment explanation
Indices: 35224850--35225108 Score: 376
Period size: 118 Copynumber: 2.2 Consensus size: 117
35224840 TTCGGGGTGT
* * *
35224850 TACAATAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGTATGTGTAATC
1 TACAATA-GGGCACGTATGTGCAATCAGGGGTACCGAAGGACAACAGGGGCACGTACGTGCAATC
* * *
35224915 AAGTGTACTGAAGTACAAACAAGGGCACGTATGTGCAATC-AGGGGTATCGAAG
65 AAGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATCTA-GGGTACCGAAG
* * *
35224968 TACAACAGGGCCACGTATGTGCAATCAGGTGTACCGAAGGACAACAGGGGCACGTACGTGCAATT
1 TACAATAGGG-CACGTATGTGCAATCAGGGGTACCGAAGGACAACAGGGGCACGTACGTGCAATC
* *
35225033 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCTAGGGTACCGAAG
65 AAGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATCTAGGGTACCGAAG
35225086 TACAATACGGGCACGTATGTGCA
1 TACAATA-GGGCACGTATGTGCA
35225109 TTCATATAAT
Statistics
Matches: 126, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
117 3 0.02
118 119 0.94
119 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.31, T:0.18
Consensus pattern (117 bp):
TACAATAGGGCACGTATGTGCAATCAGGGGTACCGAAGGACAACAGGGGCACGTACGTGCAATCA
AGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATCTAGGGTACCGAAG
Found at i:35228819 original size:20 final size:19
Alignment explanation
Indices: 35228764--35228823 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
35228754 AGGGAAANAC
35228764 CGAAGTACAAATAGGGGCA
1 CGAAGTACAAATAGGGGCA
* * *
35228783 CGTATGTGC-AATCAGGGGTA
1 CG-AAGTACAAAT-AGGGGCA
35228803 TCGAAGTACAAATAGGGGCA
1 -CGAAGTACAAATAGGGGCA
35228823 C
1 C
35228824 ATATGTGCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
19 6 0.19
20 20 0.65
21 5 0.16
ACGTcount: A:0.35, C:0.17, G:0.32, T:0.17
Consensus pattern (19 bp):
CGAAGTACAAATAGGGGCA
Found at i:35231041 original size:20 final size:20
Alignment explanation
Indices: 35230988--35231041 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 20
35230978 AAGGGCATGT
* * *
35230988 ATGTGCAATCAAGGGCACTC
1 ATGTGCAATCAGGGGAACGC
* *
35231008 AAGTACAA-CAGGGGAACGC
1 ATGTGCAATCAGGGGAACGC
35231027 ATGTGCAATCAGGGG
1 ATGTGCAATCAGGGG
35231042 TACCTAAGTA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.33, C:0.20, G:0.31, T:0.15
Consensus pattern (20 bp):
ATGTGCAATCAGGGGAACGC
Found at i:35231076 original size:33 final size:33
Alignment explanation
Indices: 35231034--35231137 Score: 127
Period size: 33 Copynumber: 2.9 Consensus size: 33
35231024 CGCATGTGCA
*
35231034 ATCAGGGGTACCTAAGTACAAATAGGGGCACGT
1 ATCAGGGGTACCGAAGTACAAATAGGGGCACGT
35231067 ATCAGGGGTACCGAAGTACAAATAGGGGCACGTATGT
1 ATCAGGGGTACCGAAGTACAAATAGGGGCAC----GT
*
35231104 GCAATCAGGGGTATCGAAGTACAAATAGGGGCAC
1 ---ATCAGGGGTACCGAAGTACAAATAGGGGCAC
35231138 ATATGTGCAT
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
33 30 0.48
37 2 0.03
40 30 0.48
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (33 bp):
ATCAGGGGTACCGAAGTACAAATAGGGGCACGT
Found at i:35231122 original size:40 final size:40
Alignment explanation
Indices: 35231067--35231146 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
35231057 AGGGGCACGT
*
35231067 ATCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
1 ATCAGGGGTACCGAAGTACAAATAGGGGCACATATGTGCA
*
35231107 ATCAGGGGTATCGAAGTACAAATAGGGGCACATATGTGCA
1 ATCAGGGGTACCGAAGTACAAATAGGGGCACATATGTGCA
35231147 TTCGTACAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (40 bp):
ATCAGGGGTACCGAAGTACAAATAGGGGCACATATGTGCA
Found at i:35231133 original size:20 final size:19
Alignment explanation
Indices: 35231070--35231134 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
35231060 GGCACGTATC
35231070 AGGGGTACCGAAGTACAAAT
1 AGGGGTA-CGAAGTACAAAT
* * *
35231090 AGGGGCACGTATGTGC-AAT
1 AGGGGTACG-AAGTACAAAT
35231109 CAGGGGTATCGAAGTACAAAT
1 -AGGGGTA-CGAAGTACAAAT
35231130 AGGGG
1 AGGGG
35231135 CACATATGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 5 0.14
20 25 0.71
21 5 0.14
ACGTcount: A:0.34, C:0.14, G:0.35, T:0.17
Consensus pattern (19 bp):
AGGGGTACGAAGTACAAAT
Found at i:35233734 original size:21 final size:21
Alignment explanation
Indices: 35233708--35233764 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
35233698 AACATAGAAA
35233708 ATTTGTTTCAATTTTTATGTT
1 ATTTGTTTCAATTTTTATGTT
*
35233729 ATTTGTTTCAATTTTTATTTT
1 ATTTGTTTCAATTTTTATGTT
* * *
35233750 TTTTCTTTTAATTTT
1 ATTTGTTTCAATTTT
35233765 ATTGCCAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (21 bp):
ATTTGTTTCAATTTTTATGTT
Found at i:35237651 original size:35 final size:35
Alignment explanation
Indices: 35237592--35237692 Score: 132
Period size: 35 Copynumber: 2.9 Consensus size: 35
35237582 TCGTCTTTCG
* *
35237592 AAGG-GACACCATGTAAACGATATATAGGTCATTT
1 AAGGTGACACCATGTAAATGATATATAGGTCATTC
* * * *
35237626 AAGGTGGCACCGTGTAAATGGTATATAGGTCCTTC
1 AAGGTGACACCATGTAAATGATATATAGGTCATTC
*
35237661 AGGGTGACACCATGTAAATGATATATAGGTCA
1 AAGGTGACACCATGTAAATGATATATAGGTCA
35237693 GGCAAGGCAA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
34 4 0.07
35 51 0.93
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (35 bp):
AAGGTGACACCATGTAAATGATATATAGGTCATTC
Found at i:35239217 original size:50 final size:50
Alignment explanation
Indices: 35239162--35239389 Score: 277
Period size: 50 Copynumber: 4.5 Consensus size: 50
35239152 GATGGTCACG
*
35239162 TGTGTAGTACTTTGTGCAGGCTACTACGTGTACCGGAATGATAGGTTGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTTGCA
35239212 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTTGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTTGCA
* * * *
35239262 TGTGTAGTACTATGTGCAGACTACTATGCGTACC--AA--ATAGTTTTGATCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAG-GTTG--CA
* * **
35239311 CGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGG-ATGGTAATGGTCACA
1 --TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTTGCA
35239364 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
35239390 TGTGAATGGA
Statistics
Matches: 154, Mismatches: 13, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
46 4 0.03
47 3 0.02
48 2 0.01
49 2 0.01
50 80 0.52
51 56 0.36
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTTGCA
Found at i:35239330 original size:51 final size:51
Alignment explanation
Indices: 35239210--35239391 Score: 172
Period size: 51 Copynumber: 3.6 Consensus size: 51
35239200 TGATAGGTTG
* * * * **
35239210 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAT-G--ATAGGTTG
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-AAATAGTAAT-GATCA
* **
35239260 CATGTGTAGTACTATGTGCAGACTACTATGCGTACCAAATAGTTTTGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGTAATGATCA
* * * *** * *
35239311 CGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATGGTAATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGTAATGATCA
35239362 CATGTGTAGTACTATGTGCAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
35239392 TGAATGGAAC
Statistics
Matches: 108, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
49 3 0.03
50 34 0.31
51 70 0.65
52 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGTAATGATCA
Found at i:35239393 original size:26 final size:26
Alignment explanation
Indices: 35239313--35239393 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
35239303 TTTGATCACG
35239313 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * ** *
35239339 CGTGTACT-GGATG-GTAATGG-TCAC-A
1 TGTGTAGTACTATGTG-CA-GGCT-ACTA
35239364 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
35239390 TGTG
1 TGTG
35239394 AATGGAACAT
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
24 1 0.03
25 16 0.42
26 20 0.53
27 1 0.03
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:35239451 original size:45 final size:45
Alignment explanation
Indices: 35239400--35239488 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
35239390 TGTGAATGGA
* *
35239400 ACATCATTAATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
*
35239445 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
35239489 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:35242348 original size:14 final size:14
Alignment explanation
Indices: 35242329--35242366 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
35242319 GTTTACCAGT
35242329 AAAATG-TTTTCCGG
1 AAAATGATTTT-CGG
*
35242343 AAAATGATTTTTGG
1 AAAATGATTTTCGG
35242357 AAAATGATTT
1 AAAATGATTT
35242367 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.39
Consensus pattern (14 bp):
AAAATGATTTTCGG
Found at i:35242508 original size:20 final size:20
Alignment explanation
Indices: 35242483--35242521 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
35242473 GTTTTCACAT
35242483 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
35242503 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
35242522 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:35246377 original size:43 final size:43
Alignment explanation
Indices: 35246318--35246447 Score: 181
Period size: 43 Copynumber: 3.0 Consensus size: 43
35246308 TACCAGATGA
35246318 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACCAG-GTAT
1 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACC-GTGTAT
* * *
35246361 CATTGATTATACGGGTGGTGTTATGTGCTGATCCACCGTGTAT
1 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACCGTGTAT
* * * *
35246404 CATTAACTATAAAGCTGGTGCTATGTGCTGATCTACCGTGTAT
1 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACCGTGTAT
35246447 C
1 C
35246448 TGTTATTATT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 75 0.99
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (43 bp):
CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACCGTGTAT
Found at i:35246492 original size:44 final size:44
Alignment explanation
Indices: 35246438--35246545 Score: 171
Period size: 44 Copynumber: 2.5 Consensus size: 44
35246428 GTGCTGATCT
*
35246438 ACCGTGTATCTGTTATTATTGGTGGCACGGACTATGTTCAGGCC
1 ACCGTGTATCTGTTATTATTGGTGGCACGGACTATGTGCAGGCC
* * * *
35246482 ACCGCGTATCTGTTATTATCGGTGGTACGGACTGTGTGCAGGCC
1 ACCGTGTATCTGTTATTATTGGTGGCACGGACTATGTGCAGGCC
35246526 ACCGTGTATCTGTTATTATT
1 ACCGTGTATCTGTTATTATT
35246546 CCGATGAGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (44 bp):
ACCGTGTATCTGTTATTATTGGTGGCACGGACTATGTGCAGGCC
Found at i:35250890 original size:43 final size:43
Alignment explanation
Indices: 35250763--35250892 Score: 179
Period size: 43 Copynumber: 3.0 Consensus size: 43
35250753 TACCAAATGG
*
35250763 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGGGTAT
1 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGTGTAT
* * * * * *
35250806 CATTGATTATACGAGTGGTGTTATGTGCTGATCTATTGTGTAT
1 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGTGTAT
* *
35250849 CATTAACTATAAGGGTGGTGCTATGTGCTGATCCACCGTGTAT
1 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGTGTAT
35250892 C
1 C
35250893 TGTTATTATT
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (43 bp):
CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGTGTAT
Found at i:35250937 original size:44 final size:44
Alignment explanation
Indices: 35250889--35250990 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 44
35250879 ATCCACCGTG
*
35250889 TATCTGTTATTATTGGTGGCACGGACTATGTGTAGGCCACCGCC
1 TATCTGTTATTATTGGTGGCACGGACTATGTGCAGGCCACCGCC
* * * **
35250933 TATCTATTATTATTGGTGGTACGGACTGTGTGCAGGCCACCGTG
1 TATCTGTTATTATTGGTGGCACGGACTATGTGCAGGCCACCGCC
35250977 TATCTGTTATTATT
1 TATCTGTTATTATT
35250991 CCGATGAGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (44 bp):
TATCTGTTATTATTGGTGGCACGGACTATGTGCAGGCCACCGCC
Found at i:35254993 original size:44 final size:44
Alignment explanation
Indices: 35254904--35254994 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
35254894 GTTTTAATCC
* * * *
35254904 ACTCCATTGCAACTTCAAGGAGATAGGATTATTTTCTTCTGTCT
1 ACTCCACTGCAACTTCAAGGAGATAAGATTAGTATCTTCTGTCT
*
35254948 ACTCCACTGCAATTTCAAGGAGATAAGACTT-GTATCTT-TGATCT
1 ACTCCACTGCAACTTCAAGGAGATAAGA-TTAGTATCTTCTG-TCT
35254992 ACT
1 ACT
35254995 TCGCCACCAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.05
44 36 0.90
45 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAAGGAGATAAGATTAGTATCTTCTGTCT
Found at i:35255030 original size:45 final size:43
Alignment explanation
Indices: 35254978--35255127 Score: 167
Period size: 45 Copynumber: 3.4 Consensus size: 43
35254968 AGATAAGACT
35254978 TGTATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATC
1 TGTATCTTTGATCTACTTC-CCACCAGTATGGGAAGACAAGATC
* * **
35255022 TGCTATCTTTGATCTACTTCACGCCAGTATATGAAGACAAGATC
1 TG-TATCTTTGATCTACTTCCCACCAGTATGGGAAGACAAGATC
* * *
35255066 TGTTAGT-TTCGATCTACTCCACCACCAGTATGGGGAGACAAGATC
1 TG-TA-TCTTTGATCTACTTC-CCACCAGTATGGGAAGACAAGATC
*
35255111 TGTCGTCTTTGATCTAC
1 TGT-ATCTTTGATCTAC
35255128 ATCATGCCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
44 39 0.45
45 48 0.55
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (43 bp):
TGTATCTTTGATCTACTTCCCACCAGTATGGGAAGACAAGATC
Found at i:35255063 original size:44 final size:43
Alignment explanation
Indices: 35254978--35255154 Score: 158
Period size: 44 Copynumber: 4.0 Consensus size: 43
35254968 AGATAAGACT
* *
35254978 TGTATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATC
1 TGTATCTTTGATCTACTTC-ACACCAGTATAGGAAGACAAGATC
* *
35255022 TGCTATCTTTGATCTACTTCACGCCAGTATATGAAGACAAGATC
1 TG-TATCTTTGATCTACTTCACACCAGTATAGGAAGACAAGATC
* * * *
35255066 TGTTAGT-TTCGATCTACTCCACCACCAGTATGGGGAGACAAGATC
1 TG-TA-TCTTTGATCTACTTCA-CACCAGTATAGGAAGACAAGATC
* * ** * * *
35255111 TGTCGTCTTTGATCTACATCATGCCAATACATGAAGACAAGATC
1 TGT-ATCTTTGATCTACTTCACACCAGTATAGGAAGACAAGATC
35255155 AGTTCCTTTT
Statistics
Matches: 106, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
44 56 0.53
45 50 0.47
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (43 bp):
TGTATCTTTGATCTACTTCACACCAGTATAGGAAGACAAGATC
Found at i:35255096 original size:89 final size:89
Alignment explanation
Indices: 35254987--35255154 Score: 248
Period size: 89 Copynumber: 1.9 Consensus size: 89
35254977 TTGTATCTTT
* * * *
35254987 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-CTATCTTTGATCTACTTCACGCCAGTA
1 GATCTACTCCACCACCAGTATGGGAAGACAAGATCTGTC-ATCTTTGATCTACATCACGCCAATA
*
35255051 TATGAAGACAAGATCTGTTAGTTTC
65 CATGAAGACAAGATCTGTTAGTTTC
* * *
35255076 GATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTCGTCTTTGATCTACATCATGCCAATAC
1 GATCTACTCCACCACCAGTATGGGAAGACAAGATCTGTCATCTTTGATCTACATCACGCCAATAC
35255141 ATGAAGACAAGATC
66 ATGAAGACAAGATC
35255155 AGTTCCTTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
89 69 0.99
90 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (89 bp):
GATCTACTCCACCACCAGTATGGGAAGACAAGATCTGTCATCTTTGATCTACATCACGCCAATAC
ATGAAGACAAGATCTGTTAGTTTC
Found at i:35256524 original size:71 final size:71
Alignment explanation
Indices: 35256408--35256548 Score: 246
Period size: 71 Copynumber: 2.0 Consensus size: 71
35256398 ACAGTGCCCA
* * *
35256408 TTTGAGGCCTTCGGCGATATTGGCTCGATGACGTCCATACCCCACATGGAGAATGGCCACGGAGA
1 TTTGAAGCCTTCGGCGATATTGGCCCGATGACATCCATACCCCACATGGAGAATGGCCACGGAGA
35256473 AGTCAG
66 AGTCAG
*
35256479 TTTGAAGCCTTCGGTGATATTGGCCCGATGACATCCATACCCCACATGGAGAATGGCCACGGAGA
1 TTTGAAGCCTTCGGCGATATTGGCCCGATGACATCCATACCCCACATGGAGAATGGCCACGGAGA
35256544 AGTCA
66 AGTCA
35256549 TGACATGCAG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.21
Consensus pattern (71 bp):
TTTGAAGCCTTCGGCGATATTGGCCCGATGACATCCATACCCCACATGGAGAATGGCCACGGAGA
AGTCAG
Found at i:35262846 original size:20 final size:20
Alignment explanation
Indices: 35262821--35262860 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
35262811 TAAAGGTCTT
35262821 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
35262841 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
35262861 ATGAGGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
TAATGCATATGATGCGATGC
Found at i:35263939 original size:43 final size:43
Alignment explanation
Indices: 35263812--35263941 Score: 197
Period size: 43 Copynumber: 3.0 Consensus size: 43
35263802 TACCAAATGG
*
35263812 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGGGTAT
1 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGTGTAT
* * * * *
35263855 CATTGATTATACGAGTGGTGTTATGTGCTGATCCATTGTGTAT
1 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGTGTAT
*
35263898 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACCGTGTAT
1 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGTGTAT
35263941 C
1 C
35263942 TGTTATTATT
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (43 bp):
CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGTGTAT
Found at i:35263986 original size:44 final size:44
Alignment explanation
Indices: 35263938--35264039 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
35263928 ATCCACCGTG
*
35263938 TATCTGTTATTATTGGTGGCACAGACTATGTGTAGGCCACCGCC
1 TATCTGTTATTATTGGTGGCACAGACTATGTGCAGGCCACCGCC
* * * * ** **
35263982 TATCTATTATTATTGGTGGTACGGACTGTGTGCAGGCCAGTGTG
1 TATCTGTTATTATTGGTGGCACAGACTATGTGCAGGCCACCGCC
35264026 TATCTGTTATTATT
1 TATCTGTTATTATT
35264040 CCAATGAGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (44 bp):
TATCTGTTATTATTGGTGGCACAGACTATGTGCAGGCCACCGCC
Found at i:35268391 original size:43 final size:43
Alignment explanation
Indices: 35268264--35268393 Score: 188
Period size: 43 Copynumber: 3.0 Consensus size: 43
35268254 TACCAAATGG
*
35268264 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGGGTAT
1 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGTGTAT
* * * * *
35268307 CATTGATTATACGAGTGGTGTTATGTGCTGATCCATTGTGTAT
1 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGTGTAT
* *
35268350 CATTGACTATAAGGGTGGTGCTATGTGCCGATCCACCGTGTAT
1 CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGTGTAT
35268393 C
1 C
35268394 TGTTATTATT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.35
Consensus pattern (43 bp):
CATTGACTATAAGGGTGGTGCTATGTGCTGATCCACTGTGTAT
Found at i:35268438 original size:44 final size:44
Alignment explanation
Indices: 35268390--35268491 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
35268380 ATCCACCGTG
*
35268390 TATCTGTTATTATTGGTGGCACAGACTATGTGTAGGCCACCGCC
1 TATCTGTTATTATTGGTGGCACAGACTATGTGCAGGCCACCGCC
* * * * ** **
35268434 TATCTATTATTATTGGTGGTACGGACTGTGTGCAGGCCAGTGTG
1 TATCTGTTATTATTGGTGGCACAGACTATGTGCAGGCCACCGCC
35268478 TATCTGTTATTATT
1 TATCTGTTATTATT
35268492 CCGATGAGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (44 bp):
TATCTGTTATTATTGGTGGCACAGACTATGTGCAGGCCACCGCC
Found at i:35273072 original size:8 final size:8
Alignment explanation
Indices: 35273059--35273114 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 8
35273049 TCTTTAGAAA
35273059 AAATATAT
1 AAATATAT
35273067 AAATATAT
1 AAATATAT
* *
35273075 ATACATAT
1 AAATATAT
*
35273083 ACATATAT
1 AAATATAT
*
35273091 AAA-AAAT
1 AAATATAT
*
35273098 AGATATAT
1 AAATATAT
*
35273106 ACATATAT
1 AAATATAT
35273114 A
1 A
35273115 TATAGATTAT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
7 5 0.13
8 33 0.87
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (8 bp):
AAATATAT
Found at i:35273112 original size:35 final size:34
Alignment explanation
Indices: 35273056--35273144 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 34
35273046 TATTCTTTAG
* *
35273056 AAAAAATATATAAATATATATACATATACATATAT
1 AAAAAATAGATAAATACATATACATATACAT-TAT
* * *
35273091 AAAAAATAGATATATACATATATATATAGATTAT
1 AAAAAATAGATAAATACATATACATATACATTAT
*
35273125 AAAAAA-A-ATAATTACATATA
1 AAAAAATAGATAAATACATATA
35273145 TAAATTATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
32 11 0.23
33 1 0.02
34 9 0.19
35 26 0.55
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (34 bp):
AAAAAATAGATAAATACATATACATATACATTAT
Found at i:35273710 original size:50 final size:48
Alignment explanation
Indices: 35273640--35273822 Score: 188
Period size: 50 Copynumber: 3.7 Consensus size: 48
35273630 GTCGGGAAAC
* * * *
35273640 AAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACATCCCTAGGGAAGT
1 AAGATTCGCCGTTGTGGCTTCAATCTATTCCATTGCATCCC-A-GGAAGT
* * * ** **
35273690 AAAATTCGTCGTTGTGGCTTCAATCTATT-AATTGCAATGTCAGGAAAC
1 AAGATTCGCCGTTGTGGCTTCAATCTATTCCATTGC-ATCCCAGGAAGT
* * *
35273738 AAGATTCACCGTAGTAGCTTCAATCTATTCCATTGCATCGCCATGGAAGT
1 AAGATTCGCCGTTGTGGCTTCAATCTATTCCATTGCATC-CCA-GGAAGT
35273788 AAGATTCGCCGTTGTGGCTTCAATCTATTCCATTG
1 AAGATTCGCCGTTGTGGCTTCAATCTATTCCATTG
35273823 TAATGCCAAA
Statistics
Matches: 105, Mismatches: 24, Indels: 8
0.77 0.18 0.06
Matches are distributed among these distances:
48 30 0.29
49 11 0.10
50 64 0.61
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (48 bp):
AAGATTCGCCGTTGTGGCTTCAATCTATTCCATTGCATCCCAGGAAGT
Found at i:35273740 original size:98 final size:98
Alignment explanation
Indices: 35273619--35273816 Score: 308
Period size: 98 Copynumber: 2.0 Consensus size: 98
35273609 TCAAATTTTT
* * *
35273619 TTAATTGCAATGTCGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACATC-CCTA
1 TTAATTGCAATGTCAGGAAACAAGATTCACCGTAGTAGCTTCAATCTATTCCACTACATCGCC-A
*
35273683 GGGAAGTAAAATTCGTCGTTGTGGCTTCAATCTA
65 GGGAAGTAAAATTCGCCGTTGTGGCTTCAATCTA
* * *
35273717 TTAATTGCAATGTCAGGAAACAAGATTCACCGTAGTAGCTTCAATCTATTCCATTGCATCGCCAT
1 TTAATTGCAATGTCAGGAAACAAGATTCACCGTAGTAGCTTCAATCTATTCCACTACATCGCCAG
*
35273782 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTA
66 GGAAGTAAAATTCGCCGTTGTGGCTTCAATCTA
35273815 TT
1 TT
35273817 CCATTGTAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 89 0.98
99 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (98 bp):
TTAATTGCAATGTCAGGAAACAAGATTCACCGTAGTAGCTTCAATCTATTCCACTACATCGCCAG
GGAAGTAAAATTCGCCGTTGTGGCTTCAATCTA
Found at i:35273844 original size:50 final size:48
Alignment explanation
Indices: 35273640--35273846 Score: 159
Period size: 50 Copynumber: 4.2 Consensus size: 48
35273630 GTCGGGAAAC
* * * * *
35273640 AAGATTCGCCGTCGTAGCTTCAATCTATTCCACT-ACATCCCTAGGGAAGT
1 AAGATTCGCCGTTGTGGCTTCAATCTATTCCATTGA-ATGCC-AAGGAA-T
* * * * *
35273690 AAAATTCGTCGTTGTGGCTTCAATCTATT-AATTGCAATGTC-AGGAAAC
1 AAGATTCGCCGTTGTGGCTTCAATCTATTCCATTG-AATGCCAAGG-AAT
* * * * *
35273738 AAGATTCACCGTAGTAGCTTCAATCTATTCCATTGCATCGCCATGGAAGT
1 AAGATTCGCCGTTGTGGCTTCAATCTATTCCATTGAAT-GCCAAGGAA-T
*
35273788 AAGATTCGCCGTTGTGGCTTCAATCTATTCCATTGTAATGCCAAAGAGAT
1 AAGATTCGCCGTTGTGGCTTCAATCTATTCCATTG-AATGCCAAGGA-AT
*
35273838 AGGATTCGC
1 AAGATTCGC
35273847 TGCCCACAGC
Statistics
Matches: 121, Mismatches: 27, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
48 28 0.23
49 12 0.10
50 77 0.64
51 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (48 bp):
AAGATTCGCCGTTGTGGCTTCAATCTATTCCATTGAATGCCAAGGAAT
Found at i:35274256 original size:45 final size:45
Alignment explanation
Indices: 35274118--35274256 Score: 140
Period size: 45 Copynumber: 3.1 Consensus size: 45
35274108 GATCCACTTT
* * *
35274118 ACTGCCAATACAGGAAGACAAGATCTTCTA-TTTTCAACCTACTCT
1 ACTGCTAATACAGGAAGACAAGATCTGCTACTTTT-AACCTACTCC
* * * * * * * *
35274163 ACTGCTACT-CAGGGAGACAAG-GCTGGTACCTTTGATCTACTTC
1 ACTGCTAATACAGGAAGACAAGATCTGCTACTTTTAACCTACTCC
*
35274206 GCTGCTAATACAGGAAGACAAGATCTGCTACTTTTAACCTACTCC
1 ACTGCTAATACAGGAAGACAAGATCTGCTACTTTTAACCTACTCC
35274251 ACTGCT
1 ACTGCT
35274257 GCTCAGGGAG
Statistics
Matches: 70, Mismatches: 21, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
43 17 0.24
44 25 0.36
45 28 0.40
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (45 bp):
ACTGCTAATACAGGAAGACAAGATCTGCTACTTTTAACCTACTCC
Found at i:35274273 original size:88 final size:88
Alignment explanation
Indices: 35274019--35274275 Score: 295
Period size: 88 Copynumber: 2.9 Consensus size: 88
35274009 CGGGTGTCTC
* * * * * *
35274019 CGATCTGCTTTGCTACTAGTACAGGAAGGCAAGATCTG-T-CATTTCCAACATACTCCACTGCTG
1 CGATCTACTTTGCTGCTAATACAGGAAGACAAGATCTGCTAC-TTT-TAACCTACTCCACTGCTG
* * * *
35274082 CTTAGGGAGATAAAGCTAGTATCTT
64 CTCAGGGAGATAAGGCTGGTACCTT
* * * * * *
35274107 CGATCCACTTTACTGCCAATACAGGAAGACAAGATCTTCTA-TTTTCAACCTACTCTACTGCTAC
1 CGATCTACTTTGCTGCTAATACAGGAAGACAAGATCTGCTACTTTT-AACCTACTCCACTGCTGC
*
35274171 TCAGGGAGACAAGGCTGGTACCTT
65 TCAGGGAGATAAGGCTGGTACCTT
* *
35274195 TGATCTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTACTTTTAACCTACTCCACTGCTGCT
1 CGATCTACTTTGCTGCTAATACAGGAAGACAAGATCTGCTACTTTTAACCTACTCCACTGCTGCT
35274260 CAGGGAGATAAGGCTG
66 CAGGGAGATAAGGCTG
35274276 AGGTCTCACC
Statistics
Matches: 139, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
88 134 0.96
89 5 0.04
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (88 bp):
CGATCTACTTTGCTGCTAATACAGGAAGACAAGATCTGCTACTTTTAACCTACTCCACTGCTGCT
CAGGGAGATAAGGCTGGTACCTT
Found at i:35275526 original size:7 final size:7
Alignment explanation
Indices: 35275507--35275561 Score: 69
Period size: 7 Copynumber: 7.9 Consensus size: 7
35275497 TTAGCCTCTC
35275507 CATTTTT
1 CATTTTT
*
35275514 -ACTTTTC
1 CA-TTTTT
35275521 CATTTTT
1 CATTTTT
35275528 CATTTTT
1 CATTTTT
35275535 CATTTTT
1 CATTTTT
35275542 CA-TTTT
1 CATTTTT
35275548 CATTTCTT
1 CATTT-TT
35275556 CATTTT
1 CATTTT
35275562 CTCACATCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
6 7 0.17
7 27 0.64
8 8 0.19
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:35293443 original size:27 final size:23
Alignment explanation
Indices: 35293413--35293475 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 23
35293403 GTCATTCTTT
35293413 TAAAATATAAATGAAAACATAAATCAA
1 TAAAATATAAA-G-AAA-ATAAA-CAA
* *
35293440 TAAAAAATGAAGAAAATAAACAA
1 TAAAATATAAAGAAAATAAACAA
35293463 -AAAATATAAAGAA
1 TAAAATATAAAGAA
35293476 TAGAAGGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
22 11 0.34
23 3 0.09
24 5 0.16
25 3 0.09
26 1 0.03
27 9 0.28
ACGTcount: A:0.71, C:0.05, G:0.06, T:0.17
Consensus pattern (23 bp):
TAAAATATAAAGAAAATAAACAA
Found at i:35293748 original size:2 final size:2
Alignment explanation
Indices: 35293743--35293802 Score: 50
Period size: 2 Copynumber: 30.5 Consensus size: 2
35293733 GTTAGAAAAA
* * * * * *
35293743 AT AT AT AA AT AT AT AT AC AT AT AC AT AT AT AT A- AA AA AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
35293784 AT AT AT AC AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
35293803 GATTATAAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (2 bp):
AT
Found at i:35293796 original size:37 final size:35
Alignment explanation
Indices: 35293738--35293817 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 35
35293728 TATTCGTTAG
* *
35293738 AAAAAATATATAAATATATATACATATACATATATA
1 AAAAAATAGATAAATACATATACATATACAT-TATA
* * *
35293774 TAAAAAATAGATATATACATATATATATAGATTATA
1 -AAAAAATAGATAAATACATATACATATACATTATA
35293810 AAAAAATA
1 AAAAAATA
35293818 ATTACATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
35 8 0.21
36 4 0.11
37 26 0.68
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.33
Consensus pattern (35 bp):
AAAAAATAGATAAATACATATACATATACATTATA
Found at i:35300193 original size:138 final size:136
Alignment explanation
Indices: 35300021--35300435 Score: 647
Period size: 138 Copynumber: 3.0 Consensus size: 136
35300011 ACATAGATAA
*
35300021 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTA-CTAAATTTATTAAT
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATC-GAATTTATTAAT
* *
35300085 AAAAATAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATTAAAATTAATATTCTTTTGG
65 -AAAA-AATTATATTAATTAATTTCAGTCAAAATATAAAAGACATTAAAATTAATATTCTTTTAG
*
35300150 AAAGGATAT
128 AAAGAATAT
35300159 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATA
* * * *
35300224 TAAACAATTAAATTAATTACTTTCAGTCAAACTATAAAAGGCA-TAGAAATTAATATTCTTTTAG
66 -AAA-AATTATATTAATTAATTTCAGTCAAAATATAAAAGACATTA-AAATTAATATTCTTTTAG
35300288 AAAGAATAT
128 AAAGAATAT
35300297 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAAT-
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATA
* * *
35300361 AAAAATTATATTAATTAATTTCAGTCAATATATAAAAGAAATGAAAATTAATATTCTTTTAGAAA
66 AAAAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATTAAAATTAATATTCTTTTAGAAA
*
35300426 GAATAC
131 GAATAT
35300432 AATT
1 AATT
35300436 CCTTTTTCTA
Statistics
Matches: 256, Mismatches: 17, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
135 62 0.24
136 4 0.02
137 3 0.01
138 186 0.73
139 1 0.00
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.41
Consensus pattern (136 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATA
AAAAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATTAAAATTAATATTCTTTTAGAAA
GAATAT
Found at i:35300557 original size:75 final size:75
Alignment explanation
Indices: 35300411--35300558 Score: 235
Period size: 75 Copynumber: 2.0 Consensus size: 75
35300401 ATGAAAATTA
*
35300411 ATATTCTTTTAGAAAGAATACAATTCCTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGG
1 ATATTCTTTTAGAAAGAATACAATTCCTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGA
35300476 GAATAATCAT
66 GAATAATCAT
* * *
35300486 ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACTTTCCATTTG-CTTTCTCTATTAATAAT
1 ATATTCTTTTAGAAAGAATACAATTCCTTTTTCTAACTTTCCATTTGTC-TTCTCTATTAATAAG
*
35300550 AGCATAATC
65 AGAATAATC
35300559 CTGATTTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
74 1 0.01
75 66 0.99
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.45
Consensus pattern (75 bp):
ATATTCTTTTAGAAAGAATACAATTCCTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGA
GAATAATCAT
Found at i:35303026 original size:102 final size:102
Alignment explanation
Indices: 35302914--35303103 Score: 328
Period size: 102 Copynumber: 1.9 Consensus size: 102
35302904 AATAAAGGAC
35302914 TGAAAATGATCAAATTAAAGTTCAAGTACTAAA-TCAACAACTTATGCAAAAATACAAGGTCTAA
1 TGAAAATGATCAAATTAAAGTTCAAGTACTAAATTC-ACAACTTATGCAAAAATACAAGGTCTAA
* *
35302978 TAGCAAAAATTGACCTATTTTATTATTGGGTATGGGAA
65 TAGCAAAAATTAACCTATGTTATTATTGGGTATGGGAA
*
35303016 TGAAAATGATCAAATTAAAGTTCAGGTACTAAATTCACAACTTATGCAAAAATACAAGGTCTAAT
1 TGAAAATGATCAAATTAAAGTTCAAGTACTAAATTCACAACTTATGCAAAAATACAAGGTCTAAT
*
35303081 AGCAAAATTTAACCTATGTTATT
66 AGCAAAAATTAACCTATGTTATT
35303104 TTATTATTGG
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
102 81 0.98
103 2 0.02
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (102 bp):
TGAAAATGATCAAATTAAAGTTCAAGTACTAAATTCACAACTTATGCAAAAATACAAGGTCTAAT
AGCAAAAATTAACCTATGTTATTATTGGGTATGGGAA
Found at i:35308511 original size:267 final size:266
Alignment explanation
Indices: 35308017--35308532 Score: 879
Period size: 267 Copynumber: 1.9 Consensus size: 266
35308007 TTGCTGCTGG
35308017 TCAGTGAGTGAAGAATCCATTTTCTCGTGCAAGAAAAGGTTCTAAGCTCCCACCGAGTTTCAACT
1 TCAGTGAGTGAAGAATCCATTTTCTCGTGCAAGAAAAGGTTCTAAGCTCCCACCGAGTTTCAACT
* *
35308082 ACTTTGCACGAACAAGCGCTGCTTATATAGTAAATCAATGATAACTTTTTTGTGGTCAGCAACAA
66 ACTTTGCACAAACAAGCGCTGCTTATATAGTAAATCAATGATAACTTGTTTGTGGTCAGCAACAA
* *
35308147 GTCAAAAGTTCATAGCACAAATCCTTGGCGGCCAGGGTCAAGGTCACGTACTTACATGGTTTTCT
131 GTCAAAAGTTCACAGCACAAATCCTTGGCGGCCAGGGCCAAGGTCACGTACTTACATGGTTTTCT
*
35308212 ATCACCACCAACACAATAACTTCGCTTTTTTACCTTAATATTATAAAAAAAAATATGAAATGGGG
196 ATCACCACCAACACAATAACTTCGCCTTTTTACCTTAATATTATAAAAAAAAATATGAAATGGGG
35308277 TTTTGA
261 TTTTGA
35308283 TCAGTGAGTGAAGAATCCATTTTCTCGTGCAAGAAAAGGTTCTAAGCTCCCACCGAGTTTCAACT
1 TCAGTGAGTGAAGAATCCATTTTCTCGTGCAAGAAAAGGTTCTAAGCTCCCACCGAGTTTCAACT
* * * * *
35308348 ACTTTGCACAAACAAGGGTTGCTTATATGGTAAATCAATGATTGACTTGTTTGTGGTGAGCAACA
66 ACTTTGCACAAACAAGCGCTGCTTATATAGTAAATCAATGA-TAACTTGTTTGTGGTCAGCAACA
* * * *
35308413 AGTCAAAAGTTGACAGCGCAAATCCTTGGTGGCCAGGGCCAAGGTTACGTACTTACATGGTTTTC
130 AGTCAAAAGTTCACAGCACAAATCCTTGGCGGCCAGGGCCAAGGTCACGTACTTACATGGTTTTC
* *
35308478 TATCACCACCAACACAATAACTTCGCCTTTTTACTTTAATATTATAAAAACAAAT
195 TATCACCACCAACACAATAACTTCGCCTTTTTACCTTAATATTATAAAAAAAAAT
35308533 TAATTCTGAA
Statistics
Matches: 233, Mismatches: 16, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
266 102 0.44
267 131 0.56
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (266 bp):
TCAGTGAGTGAAGAATCCATTTTCTCGTGCAAGAAAAGGTTCTAAGCTCCCACCGAGTTTCAACT
ACTTTGCACAAACAAGCGCTGCTTATATAGTAAATCAATGATAACTTGTTTGTGGTCAGCAACAA
GTCAAAAGTTCACAGCACAAATCCTTGGCGGCCAGGGCCAAGGTCACGTACTTACATGGTTTTCT
ATCACCACCAACACAATAACTTCGCCTTTTTACCTTAATATTATAAAAAAAAATATGAAATGGGG
TTTTGA
Found at i:35320214 original size:17 final size:17
Alignment explanation
Indices: 35320162--35320215 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
35320152 TCTAATTAAT
* *
35320162 CATTAGGGATCTTCTAG
1 CATTAGGGATCATCTTG
**
35320179 CATTAGGGAT-AAATTG
1 CATTAGGGATCATCTTG
35320195 CATTAGGGATCATCTTG
1 CATTAGGGATCATCTTG
35320212 CATT
1 CATT
35320216 TAGTTAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (17 bp):
CATTAGGGATCATCTTG
Found at i:35333861 original size:18 final size:19
Alignment explanation
Indices: 35333838--35333874 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
35333828 CTCGAAAATT
35333838 ATATTATGTGA-TGTGATG
1 ATATTATGTGATTGTGATG
35333856 ATATTATGTGATTGTGATG
1 ATATTATGTGATTGTGATG
35333875 TTTGTGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (19 bp):
ATATTATGTGATTGTGATG
Found at i:35334143 original size:22 final size:22
Alignment explanation
Indices: 35334115--35334166 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
35334105 AGGAGGAAGA
*
35334115 TATGTGG-CAGTTTATCTGCAAT
1 TATGTGGTC-GTTTATCCGCAAT
*
35334137 TATGTGGTCGTTTATCCGTAAT
1 TATGTGGTCGTTTATCCGCAAT
*
35334159 TATATGGT
1 TATGTGGT
35334167 GACTTGTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (22 bp):
TATGTGGTCGTTTATCCGCAAT
Found at i:35337933 original size:20 final size:20
Alignment explanation
Indices: 35337908--35337948 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
35337898 TCATCCCTCA
35337908 TTTCATAATCATT-TTTCATT
1 TTTCAT-ATCATTCTTTCATT
*
35337928 TTTCATTTCATTCTTTCATT
1 TTTCATATCATTCTTTCATT
35337948 T
1 T
35337949 GCACCTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTCATATCATTCTTTCATT
Found at i:35343551 original size:20 final size:21
Alignment explanation
Indices: 35343521--35343559 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35343511 TTGTATACAC
35343521 TTTGTTGCCCTTGCTTGCATA
1 TTTGTTGCCCTTGCTTGCATA
*
35343542 TTTG-TGCCCTTGTTTGCA
1 TTTGTTGCCCTTGCTTGCA
35343560 CTTCGGTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.08, C:0.23, G:0.21, T:0.49
Consensus pattern (21 bp):
TTTGTTGCCCTTGCTTGCATA
Found at i:35343568 original size:20 final size:20
Alignment explanation
Indices: 35343494--35343580 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
35343484 TTGTACAGGA
* *
35343494 TTTGAACTTCGGTGCCTTTG
1 TTTGCACTTCGGTGCCCTTG
* * * *
35343514 TATACACTTTGTTGCCCTTG
1 TTTGCACTTCGGTGCCCTTG
* **
35343534 CTTGCA-TATTTGTGCCCTTG
1 TTTGCACT-TCGGTGCCCTTG
*
35343554 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCTTG
35343574 TTATGCA
1 TT-TGCA
35343581 TCTATGATGC
Statistics
Matches: 49, Mismatches: 15, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.88
21 5 0.10
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.43
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCTTG
Found at i:35346123 original size:23 final size:21
Alignment explanation
Indices: 35346097--35346138 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
35346087 AATGCAATAT
35346097 TAAAAATGCTAACTAAAATGTCC
1 TAAAAATGC-AAC-AAAATGTCC
35346120 TAAAAATGCAACAAAATGT
1 TAAAAATGCAACAAAATGT
35346139 TACTTAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (21 bp):
TAAAAATGCAACAAAATGTCC
Found at i:35359588 original size:15 final size:15
Alignment explanation
Indices: 35359553--35359591 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
35359543 ACATTTAATT
35359553 TTATTAATTTTAAAA
1 TTATTAATTTTAAAA
**
35359568 AAATTAATTTTAAAA
1 TTATTAATTTTAAAA
35359583 TTATTAATT
1 TTATTAATT
35359592 GCTATTGTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTATTAATTTTAAAA
Found at i:35365517 original size:4 final size:4
Alignment explanation
Indices: 35365508--35365536 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
35365498 GAGAAAGAGA
35365508 TGGC TGGC TGGC TGGC TGGC TGGC TGGC T
1 TGGC TGGC TGGC TGGC TGGC TGGC TGGC T
35365537 TTGGTGTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.48, T:0.28
Consensus pattern (4 bp):
TGGC
Found at i:35370928 original size:33 final size:34
Alignment explanation
Indices: 35370877--35370951 Score: 125
Period size: 33 Copynumber: 2.2 Consensus size: 34
35370867 AGATTTAAAC
35370877 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
35370911 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
35370944 AATTTAAT
1 AAATTAAT
35370952 AAACTAACTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:35371774 original size:36 final size:36
Alignment explanation
Indices: 35371734--35371805 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
35371724 ATCATCAACA
* *
35371734 CGATCTTTGTCACTATTCGAGGAGTTCAAAAGTGTT
1 CGATCTTTGTCACTATCCGAGGAGTACAAAAGTGTT
35371770 CGATCTTTGTCACTATCCGAGGAGTACAAAAGTGTT
1 CGATCTTTGTCACTATCCGAGGAGTACAAAAGTGTT
35371806 TCAAAAGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (36 bp):
CGATCTTTGTCACTATCCGAGGAGTACAAAAGTGTT
Found at i:35372765 original size:18 final size:18
Alignment explanation
Indices: 35372742--35372780 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
35372732 CTCTTTTTGC
35372742 TCTTTTTC-ATTCTCTTTT
1 TCTTTTTCGATT-TCTTTT
35372760 TCTTTTTCGATTTCTTTT
1 TCTTTTTCGATTTCTTTT
35372778 TCT
1 TCT
35372781 GTCTTCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.72
Consensus pattern (18 bp):
TCTTTTTCGATTTCTTTT
Found at i:35386960 original size:45 final size:45
Alignment explanation
Indices: 35386898--35387062 Score: 233
Period size: 45 Copynumber: 3.7 Consensus size: 45
35386888 GGTGGGTCAA
*
35386898 CACATAGC-ACCACCTTTATAATCAATTATATTCGGTGGAATCAG
1 CACATAGCAACCACCTTTATAATCAATGATATTCGGTGGAATCAG
* * *
35386942 CACATAGCAACCACCTTTATAATAAATGATTTTCGGTGGAGTCAG
1 CACATAGCAACCACCTTTATAATCAATGATATTCGGTGGAATCAG
* ** * * *
35386987 CACATGGCAACCACCTTTATTTTCAATGATATCCGATGGAATCAA
1 CACATAGCAACCACCTTTATAATCAATGATATTCGGTGGAATCAG
35387032 CACATAGCAACCACCTTTATAATCAATGATA
1 CACATAGCAACCACCTTTATAATCAATGATA
35387063 CTTGGTACAC
Statistics
Matches: 104, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 8 0.08
45 96 0.92
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (45 bp):
CACATAGCAACCACCTTTATAATCAATGATATTCGGTGGAATCAG
Found at i:35397184 original size:36 final size:36
Alignment explanation
Indices: 35397137--35397230 Score: 161
Period size: 36 Copynumber: 2.6 Consensus size: 36
35397127 TTTGTATGTA
*
35397137 TGATTCCCATGTTAAGCATGCCCTAATTTCTGATTC
1 TGATTCGCATGTTAAGCATGCCCTAATTTCTGATTC
* *
35397173 TGATTCGCATGTTAAGCATGCCCTAATTTTTTATTC
1 TGATTCGCATGTTAAGCATGCCCTAATTTCTGATTC
35397209 TGATTCGCATGTTAAGCATGCC
1 TGATTCGCATGTTAAGCATGCC
35397231 GTAGTGATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (36 bp):
TGATTCGCATGTTAAGCATGCCCTAATTTCTGATTC
Found at i:35398521 original size:28 final size:28
Alignment explanation
Indices: 35398488--35398562 Score: 141
Period size: 28 Copynumber: 2.7 Consensus size: 28
35398478 TTACAAAAAT
35398488 TTAGATTCTGAAAACTATACTGTGAAAC
1 TTAGATTCTGAAAACTATACTGTGAAAC
*
35398516 TTAGATTCTGGAAACTATACTGTGAAAC
1 TTAGATTCTGAAAACTATACTGTGAAAC
35398544 TTAGATTCTGAAAACTATA
1 TTAGATTCTGAAAACTATA
35398563 GATACTGATA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (28 bp):
TTAGATTCTGAAAACTATACTGTGAAAC
Found at i:35398601 original size:14 final size:14
Alignment explanation
Indices: 35398555--35398601 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
35398545 TAGATTCTGA
35398555 AAACTATAGATACTG
1 AAACTATAGA-ACTG
*
35398570 ATACTATAGTAA-TG
1 AAACTATAG-AACTG
*
35398584 AAACTTTAGAACTG
1 AAACTATAGAACTG
35398598 AAAC
1 AAAC
35398602 ATTTTGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 2 0.07
14 15 0.56
15 9 0.33
16 1 0.04
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (14 bp):
AAACTATAGAACTG
Found at i:35400056 original size:40 final size:41
Alignment explanation
Indices: 35399999--35400178 Score: 177
Period size: 41 Copynumber: 4.4 Consensus size: 41
35399989 GTTTTAGAAG
* *
35399999 AATACCCCTAAATTGCACATACATGCCTCT-TTTGTACTTT
1 AATACCCCTGAATTGCACATACATGCCTCTATTTGTACTTC
** * *
35400039 GGTACCCCTGAATTGCACATACGTGCCCCTATTTGTACTTC
1 AATACCCCTGAATTGCACATACATGCCTCTATTTGTACTTC
* * * *
35400080 AATGCCCCTAAATTGCTCATACATG-CTCCTATTTGTACTTT
1 AATACCCCTGAATTGCACATACATGCCT-CTATTTGTACTTC
* * * * * *
35400121 AGTGCCCCTGTATTGCACATACGTGCCTTTCTTTGTACTTC
1 AATACCCCTGAATTGCACATACATGCCTCTATTTGTACTTC
*
35400162 GATACCCCTGAA-TGCAC
1 AATACCCCTGAATTGCAC
35400179 TTTTGTACCC
Statistics
Matches: 111, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
40 31 0.28
41 78 0.70
42 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.35
Consensus pattern (41 bp):
AATACCCCTGAATTGCACATACATGCCTCTATTTGTACTTC
Found at i:35400139 original size:82 final size:81
Alignment explanation
Indices: 35399999--35400178 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
35399989 GTTTTAGAAG
*
35399999 AATACCCCTAAATTGCACATACATGCCTCTTTTGTACTTTGGTACCCCTGAATTGCACATACGTG
1 AATACCCCTAAATTGCACATACATGCCTCTTTTGTACTTTAGTACCCCTGAATTGCACATACGTG
35400064 CCCCTATTTGTACTTC
66 CCCCTATTTGTACTTC
* * * *
35400080 AATGCCCCTAAATTGCTCATACATG-CTCCTATTTGTACTTTAGTGCCCCTGTATTGCACATACG
1 AATACCCCTAAATTGCACATACATGCCT-CT-TTTGTACTTTAGTACCCCTGAATTGCACATACG
** *
35400144 TGCCTTTCTTTGTACTTC
64 TGCCCCTATTTGTACTTC
* *
35400162 GATACCCCTGAA-TGCAC
1 AATACCCCTAAATTGCAC
35400179 TTTTGTACCC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 2 0.02
81 29 0.34
82 54 0.64
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.35
Consensus pattern (81 bp):
AATACCCCTAAATTGCACATACATGCCTCTTTTGTACTTTAGTACCCCTGAATTGCACATACGTG
CCCCTATTTGTACTTC
Found at i:35423309 original size:45 final size:45
Alignment explanation
Indices: 35423245--35423338 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
35423235 AACAGATACT
* *
35423245 CGGTGGATTCAACACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
* *
35423290 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
35423335 CGGT
1 CGGT
35423339 TCACGTAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:35426399 original size:49 final size:51
Alignment explanation
Indices: 35426340--35426452 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
35426330 TCAAGTGTGG
* *
35426340 ATGTGAAGGCCACTTTGAGAAG-AGATAG-TTT-GATCACAAGTGTGGTACT
1 ATGTGAAGGCCACTTTGAGAAGAAGATAGCTTTGGCT-ACAAGGGTGGTACT
* *
35426389 ATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTGGCTACAAGGGTGGTACT
1 ATGTGAAGGCCACTTTGAGAAGAAGATAGCTTTGGCTACAAGGGTGGTACT
*
35426440 ATGTGCAGGCCAC
1 ATGTGAAGGCCAC
35426453 GAGGTATCCG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
49 21 0.38
50 5 0.09
51 28 0.50
52 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (51 bp):
ATGTGAAGGCCACTTTGAGAAGAAGATAGCTTTGGCTACAAGGGTGGTACT
Found at i:35428162 original size:26 final size:26
Alignment explanation
Indices: 35428118--35428208 Score: 94
Period size: 26 Copynumber: 3.5 Consensus size: 26
35428108 TCAATCTTTG
*
35428118 ACTGGCGAACCCCAATTCACAACTCA
1 ACTGGCGAACCCCAGTTCACAACTCA
* *
35428144 ACTGGCGAACACCAGTTCACCAA-ACA
1 ACTGGCGAACCCCAGTTCA-CAACTCA
* * *
35428170 GACTGGCGAACCCCAGTTCGCAGCTTA
1 -ACTGGCGAACCCCAGTTCACAACTCA
*
35428197 CCTGGCGAACCC
1 ACTGGCGAACCC
35428209 TAGCTTGTCA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
26 32 0.60
27 21 0.40
ACGTcount: A:0.30, C:0.37, G:0.19, T:0.14
Consensus pattern (26 bp):
ACTGGCGAACCCCAGTTCACAACTCA
Found at i:35428179 original size:27 final size:27
Alignment explanation
Indices: 35428117--35428188 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
35428107 CTCAATCTTT
* *
35428117 GACTGGCGAACCCCAATTCACAACTCA
1 GACTGGCGAACCCCAGTTCACAACACA
*
35428144 -ACTGGCGAACACCAGTTCACCAA-ACA
1 GACTGGCGAACCCCAGTTCA-CAACACA
35428170 GACTGGCGAACCCCAGTTC
1 GACTGGCGAACCCCAGTTC
35428189 GCAGCTTACC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 19 0.49
27 20 0.51
ACGTcount: A:0.32, C:0.36, G:0.18, T:0.14
Consensus pattern (27 bp):
GACTGGCGAACCCCAGTTCACAACACA
Found at i:35431081 original size:29 final size:29
Alignment explanation
Indices: 35431048--35431119 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
35431038 CTTTAATAGC
* *
35431048 GATAGCCACAAAGGCATCGTTTTGACAAA
1 GATAGCCACAAAGGAATCCTTTTGACAAA
* *
35431077 TATAGCCACAAAGGAATCCTTTTGACAGA
1 GATAGCCACAAAGGAATCCTTTTGACAAA
*
35431106 GATCGCCACAAAGG
1 GATAGCCACAAAGG
35431120 TTTTCTTATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (29 bp):
GATAGCCACAAAGGAATCCTTTTGACAAA
Found at i:35444286 original size:29 final size:31
Alignment explanation
Indices: 35444237--35444300 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 31
35444227 CTTGACCCGA
35444237 ATATATTATTATAATAAATAATTATATTAATT
1 ATATATTATTATAATAAATAATTATA-TAATT
*
35444269 ATATATT-TTA-AAT-AATAATTATATACTT
1 ATATATTATTATAATAAATAATTATATAATT
35444297 ATAT
1 ATAT
35444301 TAAATCACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 8 0.26
29 10 0.32
30 3 0.10
31 3 0.10
32 7 0.23
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (31 bp):
ATATATTATTATAATAAATAATTATATAATT
Found at i:35449433 original size:11 final size:11
Alignment explanation
Indices: 35449417--35449458 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
35449407 CTTCATTCAT
*
35449417 CATCCCTTAGG
1 CATCCCTCAGG
*
35449428 CATCCCTCAAG
1 CATCCCTCAGG
35449439 CATCCCTCAGG
1 CATCCCTCAGG
35449450 CATCCCTCA
1 CATCCCTCA
35449459 TTCATTCTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.21, C:0.45, G:0.12, T:0.21
Consensus pattern (11 bp):
CATCCCTCAGG
Found at i:35449442 original size:22 final size:22
Alignment explanation
Indices: 35449417--35449458 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
35449407 CTTCATTCAT
*
35449417 CATCCCTTAGGCATCCCTCAAG
1 CATCCCTCAGGCATCCCTCAAG
35449439 CATCCCTCAGGCATCCCTCA
1 CATCCCTCAGGCATCCCTCA
35449459 TTCATTCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.45, G:0.12, T:0.21
Consensus pattern (22 bp):
CATCCCTCAGGCATCCCTCAAG
Found at i:35449577 original size:18 final size:18
Alignment explanation
Indices: 35449556--35449602 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
35449546 TCTTGTCGAA
35449556 AAAATAATTAATTTTTAC
1 AAAATAATTAATTTTTAC
35449574 AAAATAATTAATTTTTAC
1 AAAATAATTAATTTTTAC
35449592 AAAATAATTAA
1 AAAATAATTAA
35449603 AGTGCACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATAATTAATTTTTAC
Found at i:35457027 original size:13 final size:13
Alignment explanation
Indices: 35457009--35457037 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
35456999 GTAGCAAAGA
35457009 TTTTGCAAGCAGG
1 TTTTGCAAGCAGG
35457022 TTTTGCAAGCAGG
1 TTTTGCAAGCAGG
35457035 TTT
1 TTT
35457038 CTTTTGGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.38
Consensus pattern (13 bp):
TTTTGCAAGCAGG
Found at i:35462219 original size:20 final size:19
Alignment explanation
Indices: 35462194--35462231 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
35462184 GCATCCCTCA
*
35462194 ATCATTCCTCATTCATTCTC
1 ATCATTCATCATTC-TTCTC
35462214 ATCATTCATCATTCTTCT
1 ATCATTCATCATTCTTCT
35462232 TTTTTCTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.47
Consensus pattern (19 bp):
ATCATTCATCATTCTTCTC
Found at i:35464545 original size:55 final size:54
Alignment explanation
Indices: 35464464--35464635 Score: 136
Period size: 53 Copynumber: 3.2 Consensus size: 54
35464454 GTGTCCGTGC
** * *
35464464 CCGTGTAACTCTCTAACTTGG-GTCACACGGCCAAG-CCACACGCCCTTGTGCCAGG
1 CCGTGTAACTCTC-AAAATGGCCTCACACGCCCAAGTCC-CA-GCCCTTGTGCCAGG
* * * *
35464519 CCGTGTAACTCTCAAAATGGCCTCACAC-CCCATGTGCCAGGCCTTGTGCTAGG
1 CCGTGTAACTCTCAAAATGGCCTCACACGCCCAAGTCCCAGCCCTTGTGCCAGG
* * * * * * *
35464572 TCGTGTAACTCTCGAAATTGCCTCACACGCCCATGTGCCAAG-CCTTGTGCTAAG
1 CCGTGTAACTCTCAAAATGGCCTCACACGCCCAAGT-CCCAGCCCTTGTGCCAGG
*
35464626 CCATGTAACT
1 CCGTGTAACT
35464636 GCCTGACTTT
Statistics
Matches: 97, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
53 37 0.38
54 37 0.38
55 23 0.24
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.23
Consensus pattern (54 bp):
CCGTGTAACTCTCAAAATGGCCTCACACGCCCAAGTCCCAGCCCTTGTGCCAGG
Found at i:35464583 original size:53 final size:54
Alignment explanation
Indices: 35464507--35464635 Score: 188
Period size: 53 Copynumber: 2.4 Consensus size: 54
35464497 AGCCACACGC
* *
35464507 CCTTGTGCCAGGCCGTGTAACTCTCAAAATGGCCTCACAC-CCCATGTGCCAGG
1 CCTTGTGCTAGGCCGTGTAACTCTCAAAATGGCCTCACACGCCCATGTGCCAAG
* * *
35464560 CCTTGTGCTAGGTCGTGTAACTCTCGAAATTGCCTCACACGCCCATGTGCCAAG
1 CCTTGTGCTAGGCCGTGTAACTCTCAAAATGGCCTCACACGCCCATGTGCCAAG
* *
35464614 CCTTGTGCTAAGCCATGTAACT
1 CCTTGTGCTAGGCCGTGTAACT
35464636 GCCTGACTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 36 0.54
54 31 0.46
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.25
Consensus pattern (54 bp):
CCTTGTGCTAGGCCGTGTAACTCTCAAAATGGCCTCACACGCCCATGTGCCAAG
Found at i:35465796 original size:26 final size:26
Alignment explanation
Indices: 35465760--35465809 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
35465750 CCTTTACATA
35465760 TATGCTCACACAAGCTATGAAATAAG
1 TATGCTCACACAAGCTATGAAATAAG
*
35465786 TATGCTCACACGAGCTATGAAATA
1 TATGCTCACACAAGCTATGAAATA
35465810 GGCCTACTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (26 bp):
TATGCTCACACAAGCTATGAAATAAG
Found at i:35465819 original size:26 final size:26
Alignment explanation
Indices: 35465764--35465821 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
35465754 TACATATATG
* *
35465764 CTCACACAAGCTATGAAATAAGTATG
1 CTCACACAAGCTATGAAATAAGCATA
* * *
35465790 CTCACACGAGCTATGAAATAGGCCTA
1 CTCACACAAGCTATGAAATAAGCATA
35465816 CTCACA
1 CTCACA
35465822 TGAGTTGTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.21
Consensus pattern (26 bp):
CTCACACAAGCTATGAAATAAGCATA
Found at i:35483194 original size:11 final size:11
Alignment explanation
Indices: 35483176--35483206 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
35483166 AAATCAAGTA
35483176 GCCGATCATCT
1 GCCGATCATCT
*
35483187 GTCGATCATCT
1 GCCGATCATCT
35483198 GCCGATCAT
1 GCCGATCAT
35483207 TTCTAGATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.29
Consensus pattern (11 bp):
GCCGATCATCT
Found at i:35487009 original size:20 final size:20
Alignment explanation
Indices: 35486984--35487022 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
35486974 TGCAAGTATG
*
35486984 ATTTCTGATTTTAT-TTGAGT
1 ATTTCT-ATGTTATCTTGAGT
35487004 ATTTCTATGTTATCTTGAG
1 ATTTCTATGTTATCTTGAG
35487023 CTATGGAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (20 bp):
ATTTCTATGTTATCTTGAGT
Found at i:35490053 original size:48 final size:48
Alignment explanation
Indices: 35489990--35490129 Score: 169
Period size: 48 Copynumber: 2.9 Consensus size: 48
35489980 ATTCTGTCAT
35489990 GACAC-AAGAGTGGCACGGACTGTGTGCAGGCCACC-AATAATCTGTTAA
1 GACACTAAG-GTGGCACGGACTGTGTGCAGGCCACCGAA-AATCTGTTAA
* * * *
35490038 GATAC-AAGGCTGGCACGGACTATGTGTAGGCCACCGAAAATCTGTTAT
1 GACACTAAGG-TGGCACGGACTGTGTGCAGGCCACCGAAAATCTGTTAA
* *
35490086 TACACTAAGGTGGTACGGACTGTGTGCAGGCCACCGAGAAATCT
1 GACACTAAGGTGGCACGGACTGTGTGCAGGCCACCGA-AAATCT
35490130 ATTTTTATTC
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
47 1 0.01
48 66 0.84
49 12 0.15
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (48 bp):
GACACTAAGGTGGCACGGACTGTGTGCAGGCCACCGAAAATCTGTTAA
Found at i:35498858 original size:3 final size:3
Alignment explanation
Indices: 35498850--35498875 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
35498840 TATGTGATAA
35498850 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
35498876 GGATCAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:35501687 original size:27 final size:27
Alignment explanation
Indices: 35501648--35501952 Score: 348
Period size: 27 Copynumber: 11.3 Consensus size: 27
35501638 GGCTTAGGCC
*
35501648 GTAAAATTTCCAAAATACCCTCGATAG
1 GTAAAATTACCAAAATACCCTCGATAG
35501675 GTAAAATTACCAAAATACCCTCGATAG
1 GTAAAATTACCAAAATACCCTCGATAG
* *
35501702 GTAAAATTACCAAAATACCCTCAATGG
1 GTAAAATTACCAAAATACCCTCGATAG
* *
35501729 GTAAAATTACCAAGATGCCCTCGAT-G
1 GTAAAATTACCAAAATACCCTCGATAG
* * * *
35501755 GATAAAATTACTAAAATACTCTTGATGG
1 G-TAAAATTACCAAAATACCCTCGATAG
*
35501783 GTAAAATTACCAAAATACCCTCGATGG
1 GTAAAATTACCAAAATACCCTCGATAG
*
35501810 GTAAAATTACCAAAATACCCTCGATGG
1 GTAAAATTACCAAAATACCCTCGATAG
* *
35501837 GTAAAATTACCAACATACCCTCGATGG
1 GTAAAATTACCAAAATACCCTCGATAG
* * *
35501864 GTAATATTACCAAAATACCC-CAAAAGG
1 GTAAAATTACCAAAATACCCTCGATA-G
* * *
35501891 GTAAAAATTACTAAAATACCCT-TAAAGG
1 GT-AAAATTACCAAAATACCCTCGATA-G
**
35501919 GTAAAATTATTAAAATACCCTCGA-AGG
1 GTAAAATTACCAAAATACCCTCGATA-G
35501946 GTAAAAT
1 GTAAAAT
35501953 GACCGTTATA
Statistics
Matches: 247, Mismatches: 25, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
26 4 0.02
27 217 0.88
28 26 0.11
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCTCGATAG
Found at i:35501786 original size:81 final size:81
Alignment explanation
Indices: 35501648--35501952 Score: 405
Period size: 81 Copynumber: 3.8 Consensus size: 81
35501638 GGCTTAGGCC
* * *
35501648 GTAAAATTTCCAAAATACCCTCGATAGGTAAAATTACCAAAATACCCTCGATAGGTAAAATTACC
1 GTAAAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTACC
35501713 AAAATACCCTCAATGG
66 AAAATACCCTCAATGG
* * * * * *
35501729 GTAAAATTACCAAGATGCCCTCGATGGATAAAATTACTAAAATACTCTTGATGGGTAAAATTACC
1 GTAAAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTACC
*
35501794 AAAATACCCTCGATGG
66 AAAATACCCTCAATGG
* *
35501810 GTAAAATTACCAAAATACCCTCGATGGGTAAAATTACCAACATACCCTCGATGGGTAATATTACC
1 GTAAAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTACC
*
35501875 AAAATACCC-CAAAAGG
66 AAAATACCCTC-AATGG
* ** * ** *
35501891 GTAAAAATTACTAAAATACCCTTAAAGGGTAAAATTATTAAAATACCCTCGAAGGGTAAAAT
1 GT-AAAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGTAAAAT
35501953 GACCGTTATA
Statistics
Matches: 193, Mismatches: 29, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
80 1 0.01
81 142 0.74
82 50 0.26
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (81 bp):
GTAAAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTACC
AAAATACCCTCAATGG
Found at i:35502032 original size:26 final size:26
Alignment explanation
Indices: 35501978--35502040 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
35501968 AGGAGAATAA
*
35501978 ATGACTGTTATGGCTTTATGCTATGT
1 ATGACTGTTATGGCTTTATGCTATAT
*
35502004 ATGACTG-TAT-GCTTTATGACGTTTAT
1 ATGACTGTTATGGCTTTATG-C-TATAT
*
35502030 ATGACTATTAT
1 ATGACTGTTAT
35502041 TGAGTATGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 8 0.26
25 4 0.13
26 16 0.52
27 3 0.10
ACGTcount: A:0.24, C:0.11, G:0.19, T:0.46
Consensus pattern (26 bp):
ATGACTGTTATGGCTTTATGCTATAT
Found at i:35505407 original size:17 final size:17
Alignment explanation
Indices: 35505382--35505416 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
35505372 ACTCAATAAA
*
35505382 ATTTTTTTGCCTACACC
1 ATTTCTTTGCCTACACC
35505399 ATTTCTTTGCCTACACC
1 ATTTCTTTGCCTACACC
35505416 A
1 A
35505417 GTTATATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (17 bp):
ATTTCTTTGCCTACACC
Found at i:35510021 original size:27 final size:27
Alignment explanation
Indices: 35509979--35510134 Score: 190
Period size: 27 Copynumber: 5.7 Consensus size: 27
35509969 GGCTTAAGCC
* *
35509979 GTAAAATTACCAAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGAAGG
*
35510006 GTAAAATTACCGAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGAAGG
*
35510033 GTAAAATTATCGAAATACCCT-GAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* * *
35510059 GTAAAAATTACCAAAATA-CCTCTAAAAG
1 GT-AAAATTACCGAAATACCCTC-GAAGG
* *
35510087 GTAATAATTACTGAAATATCCTCGAAGG
1 GTAA-AATTACCGAAATACCCTCGAAGG
35510115 GTAAAATTACCGAAATACCC
1 GTAAAATTACCGAAATACCC
35510135 CTAAAAGGTA
Statistics
Matches: 111, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
26 9 0.08
27 75 0.68
28 23 0.21
29 4 0.04
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTCGAAGG
Found at i:35510095 original size:28 final size:27
Alignment explanation
Indices: 35509979--35510153 Score: 124
Period size: 27 Copynumber: 6.4 Consensus size: 27
35509969 GGCTTAAGCC
* * **
35509979 GTAAAATTACCAAAATACC-CTCGATGG
1 GTAAAATTACCGAAATACCTCT-AAAAG
* **
35510006 GTAAAATTACCGAAATACC-CTCGATGG
1 GTAAAATTACCGAAATACCTCT-AAAAG
* * *
35510033 GTAAAATTATCGAAATACC-CTGAAGG
1 GTAAAATTACCGAAATACCTCTAAAAG
*
35510059 GTAAAAATTACCAAAATACCTCTAAAAG
1 GT-AAAATTACCGAAATACCTCTAAAAG
* * *
35510087 GTAATAATTACTGAAATATCCTC-GAAGG
1 GTAA-AATTACCGAAATA-CCTCTAAAAG
*
35510115 GTAAAATTACCGAAATACCCCTAAAAG
1 GTAAAATTACCGAAATACCTCTAAAAG
* *
35510142 GTAGAATGACCG
1 GTAAAATTACCG
35510154 TTATACCCCT
Statistics
Matches: 126, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
26 9 0.07
27 88 0.70
28 25 0.20
29 4 0.03
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCTCTAAAAG
Found at i:35510117 original size:82 final size:81
Alignment explanation
Indices: 35509981--35510134 Score: 220
Period size: 82 Copynumber: 1.9 Consensus size: 81
35509971 CTTAAGCCGT
* ** * *
35509981 AAAATTACCAAAATACCCTCGATGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCGA
1 AAAATTACCAAAATACCCTCAAAAGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACCGA
35510046 AATACCCTGAAGGGTA
66 AATACCCTGAAGGGTA
* *
35510062 AAAATTACCAAAATA-CCTCTAAAAGGTAATAATTACTGAAATATCCTCGAAGGGTAAAATTACC
1 AAAATTACCAAAATACCCTC-AAAAGGTAA-AATTACCGAAATACCCTCGAAGGGTAAAATTACC
35510126 GAAATACCC
64 GAAATACCC
35510135 CTAAAAGGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
80 4 0.06
81 21 0.33
82 39 0.61
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAAAAGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACCGA
AATACCCTGAAGGGTA
Found at i:35516068 original size:20 final size:19
Alignment explanation
Indices: 35516004--35516068 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
35515994 AACAGGATTT
* *
35516004 GCACTTCGGTGCCTCTATTT
1 GCACTTCGGTGCCT-TGTTC
* *
35516024 GCACTTCGGTGCCCCTGTAC
1 GCACTTCGGTG-CCTTGTTC
*
35516044 ACACTTCGGTGTCCTTGTTC
1 GCACTTCGGTG-CCTTGTTC
35516064 GCACT
1 GCACT
35516069 ACGATGCCCC
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 33 0.94
21 2 0.06
ACGTcount: A:0.11, C:0.34, G:0.22, T:0.34
Consensus pattern (19 bp):
GCACTTCGGTGCCTTGTTC
Found at i:35516068 original size:40 final size:40
Alignment explanation
Indices: 35516005--35516080 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
35515995 ACAGGATTTG
* * *
35516005 CACTTCGGTGCCTCTATTTGCACTTCGGTGCCCCTGTACA
1 CACTTCGGTGCCTCTATTCGCACTACGATGCCCCTGTACA
*
35516045 CACTTCGGTGTCCT-TGTTCGCACTACGATGCCCCTG
1 CACTTCGGTG-CCTCTATTCGCACTACGATGCCCCTG
35516081 GTTTCACATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 28 0.90
41 3 0.10
ACGTcount: A:0.12, C:0.36, G:0.21, T:0.32
Consensus pattern (40 bp):
CACTTCGGTGCCTCTATTCGCACTACGATGCCCCTGTACA
Found at i:35522615 original size:40 final size:40
Alignment explanation
Indices: 35522561--35522812 Score: 218
Period size: 40 Copynumber: 6.3 Consensus size: 40
35522551 AACTTGAACA
* * *
35522561 CACATACGTACCCCTGTTTGTACTACGGTACCCCTGAATA
1 CACATACGTGCCCCTGATTGTACTACGGTACCCCTGAATG
* * * * * *
35522601 CACATATGTGCCCCTGATTATATTTCAGTACCCCTAAATG
1 CACATACGTGCCCCTGATTGTACTACGGTACCCCTGAATG
* * * * * * *
35522641 CACATATGTG-TCCTAATTCTACTACGATACCCTTAAATG
1 CACATACGTGCCCCTGATTGTACTACGGTACCCCTGAATG
* * * ** * * *
35522680 GACATACGTGCCCCTAATTTTACTTTGATACCCCTAAACG
1 CACATACGTGCCCCTGATTGTACTACGGTACCCCTGAATG
** * *
35522720 CACATACGTGCCTTTAATTGTACTACGGTACCCTTGAATG
1 CACATACGTGCCCCTGATTGTACTACGGTACCCCTGAATG
* * *
35522760 CACATATGTGCCCCTGGTTGTACTTCGGTACCCCTGAATG
1 CACATACGTGCCCCTGATTGTACTACGGTACCCCTGAATG
35522800 CACATACGTGCCC
1 CACATACGTGCCC
35522813 TTGTTTGTGC
Statistics
Matches: 168, Mismatches: 43, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
39 29 0.17
40 139 0.83
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.30
Consensus pattern (40 bp):
CACATACGTGCCCCTGATTGTACTACGGTACCCCTGAATG
Found at i:35522771 original size:80 final size:78
Alignment explanation
Indices: 35522578--35522811 Score: 272
Period size: 80 Copynumber: 3.0 Consensus size: 78
35522568 GTACCCCTGT
* * *
35522578 TTGTACTACGGTACCCCTGAATACACATATGTGCCCCTGATTATA-TTTCAGTACCCCTAAATGC
1 TTGTACTACGGTACCCTTGAATGCACATATGTGCCCCTGATTATACTTTGA-TACCCCTAAATGC
*
35522642 ACATATGTGTCCTAA
65 ACATACGTG-CCTAA
* * * * * * * *
35522657 TTCTACTACGATACCCTTAAATGGACATACGTGCCCCTAATTTTACTTTGATACCCCTAAACGCA
1 TTGTACTACGGTACCCTTGAATGCACATATGTGCCCCTGATTATACTTTGATACCCCTAAATGCA
35522722 CATACGTGCCTTTAA
66 CATACGTGCC--TAA
* * * * *
35522737 TTGTACTACGGTACCCTTGAATGCACATATGTGCCCCTGGTTGTACTTCGGTACCCCTGAATGCA
1 TTGTACTACGGTACCCTTGAATGCACATATGTGCCCCTGATTATACTTTGATACCCCTAAATGCA
35522802 CATACGTGCC
66 CATACGTGCC
35522812 CTTGTTTGTG
Statistics
Matches: 128, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
78 2 0.02
79 56 0.44
80 70 0.55
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (78 bp):
TTGTACTACGGTACCCTTGAATGCACATATGTGCCCCTGATTATACTTTGATACCCCTAAATGCA
CATACGTGCCTAA
Found at i:35525842 original size:45 final size:45
Alignment explanation
Indices: 35525764--35525941 Score: 227
Period size: 45 Copynumber: 4.0 Consensus size: 45
35525754 AACAGTTACA
* *
35525764 CGGTGG-ATCAGCACATAGC-ACCACCCTCATAATCAA-GTATATT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG-ATATT
* * *
35525807 CGGTGGAATAAGCACATAGCAGCCACCTTTATAATCAATGATTTT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATT
* * ** *
35525852 CGGTGGAGTCAGCACATAGCAACCCCCTTTATTTTCAATGATATC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATT
*
35525897 CGGTGGAATCAGCACATAGCAACCACCTTTATATTCAATGATATT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATT
35525942 TGTTCTATTC
Statistics
Matches: 115, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
43 6 0.05
44 12 0.10
45 96 0.83
46 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATT
Found at i:35530205 original size:27 final size:27
Alignment explanation
Indices: 35530175--35530352 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35530165 ATATTGAGTC
* * * *
35530175 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35530202 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35530229 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35530257 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35530284 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35530311 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35530338 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35530353 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35530314 original size:82 final size:81
Alignment explanation
Indices: 35530196--35530351 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35530186 TGCTATATAA
* *
35530196 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35530261 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35530278 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35530342 CACTTAGTGC
65 CACTTAGTGC
35530352 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35541724 original size:33 final size:33
Alignment explanation
Indices: 35541682--35541748 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
35541672 TTAGAGTATG
* *
35541682 CCCAAAAGATCAATCATGAGATGGTTGTAATAA
1 CCCAAAAGATAAATCATGAAATGGTTGTAATAA
35541715 CCCAAAAGATAAATCATGAAATGGTTGTAATAA
1 CCCAAAAGATAAATCATGAAATGGTTGTAATAA
35541748 C
1 C
35541749 ATACTTGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (33 bp):
CCCAAAAGATAAATCATGAAATGGTTGTAATAA
Found at i:35543765 original size:35 final size:34
Alignment explanation
Indices: 35543692--35543773 Score: 85
Period size: 35 Copynumber: 2.4 Consensus size: 34
35543682 ATGCGGTTCG
* *
35543692 TACCGCGGGGCTCTGCCCCCACACCCCTGGTCCA
1 TACCGCGGGGCTCCGCCCCCACACCCCTGCTCCA
* * *
35543726 TACCGCGGGGGCTCCGCCCCCTCACTCCTTGCT-CT
1 TACCGC-GGGGCTCCGCCCCCACAC-CCCTGCTCCA
35543761 TACCGCAGGGGCT
1 TACCGC-GGGGCT
35543774 ATAACTATTG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
34 6 0.15
35 29 0.73
36 5 0.12
ACGTcount: A:0.10, C:0.46, G:0.26, T:0.18
Consensus pattern (34 bp):
TACCGCGGGGCTCCGCCCCCACACCCCTGCTCCA
Found at i:35543803 original size:12 final size:13
Alignment explanation
Indices: 35543779--35543807 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
35543769 GGGCTATAAC
35543779 TATTGCATTTATT
1 TATTGCATTTATT
35543792 TATTGC-TTTATT
1 TATTGCATTTATT
35543804 TATT
1 TATT
35543808 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:35549081 original size:94 final size:94
Alignment explanation
Indices: 35548918--35549106 Score: 333
Period size: 94 Copynumber: 2.0 Consensus size: 94
35548908 ACGTACACCG
** *
35548918 TAACTGGTTGTTCAATAAAGGCTGATGTTGGATATACCATGATCTATGTAGAAGGATATGGTTGC
1 TAACTGGTTGTTCAATAAAGGCTGATGTTGGATATACCACAATCTATGTAGAAGGATATGGTTGA
35548983 TCAATATAGGATAAGTCCCTCCTACATAA
66 TCAATATAGGATAAGTCCCTCCTACATAA
* *
35549012 TAACTGGTTGTTCTATAAAGGCTGATGTTGGATATACCACAATCTATGTAGAGGGATATGGTTGA
1 TAACTGGTTGTTCAATAAAGGCTGATGTTGGATATACCACAATCTATGTAGAAGGATATGGTTGA
35549077 TCAATATAGGATAAGTCCCTCCTACATAA
66 TCAATATAGGATAAGTCCCTCCTACATAA
35549106 T
1 T
35549107 GGGAGTAATA
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (94 bp):
TAACTGGTTGTTCAATAAAGGCTGATGTTGGATATACCACAATCTATGTAGAAGGATATGGTTGA
TCAATATAGGATAAGTCCCTCCTACATAA
Found at i:35566090 original size:22 final size:23
Alignment explanation
Indices: 35566065--35566113 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
35566055 ATCAGCTTCT
35566065 TTAATAC-ACCTATTAAGACACA
1 TTAATACGACCTATTAAGACACA
* *
35566087 TTAA-ACGACTTATTAGGACACA
1 TTAATACGACCTATTAAGACACA
35566109 TTAAT
1 TTAAT
35566114 CATACCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (23 bp):
TTAATACGACCTATTAAGACACA
Found at i:35576436 original size:39 final size:39
Alignment explanation
Indices: 35576369--35576443 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
35576359 ACAATTGAAA
* *
35576369 CACATATTAATGATGTTCAAACTCAGACATACTTAATGT
1 CACATATTAATGATGTTCAAACTAAGACATAATTAATGT
*
35576408 CACATATTAGTGATGTTCAAA-TGAAGACATAATTAA
1 CACATATTAATGATGTTCAAACT-AAGACATAATTAA
35576444 AACTCAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (39 bp):
CACATATTAATGATGTTCAAACTAAGACATAATTAATGT
Found at i:35579565 original size:25 final size:24
Alignment explanation
Indices: 35579509--35579578 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
35579499 CTTACCGACT
* *
35579509 TGTATGAGCTCACCATTATTCAAC
1 TGTATGAGCTTACCATTACTCAAC
*
35579533 TCGCATGAGCTTACCATTACTCAACC
1 T-GTATGAGCTTACCATTACTCAA-C
35579559 TGTATGAGCTTACCGATTAC
1 TGTATGAGCTTACC-ATTAC
35579579 AGCTCGTAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 31 0.79
26 7 0.18
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (24 bp):
TGTATGAGCTTACCATTACTCAAC
Found at i:35582466 original size:29 final size:29
Alignment explanation
Indices: 35582435--35582721 Score: 268
Period size: 29 Copynumber: 9.8 Consensus size: 29
35582425 GATGGTTGAA
**
35582435 ACCATCCCTTTTCATATTCGATGGTCAAA
1 ACCATCCCTTTTCATATTCGATGGTCATC
*
35582464 ACCATCCCTTTTCATTAATCGATGGTCATC
1 ACCATCCCTTTTCA-TATTCGATGGTCATC
* *
35582494 ACCATCCCTTTTCTTATTTGATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCATC
* ** **
35582523 ACCATCCCTTTTCATAGTCGATACTCAAA
1 ACCATCCCTTTTCATATTCGATGGTCATC
* * * *
35582552 ACTATCCATTTTCATATTTGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCATC
* *
35582581 ACCATCCCTTTTCATATTCGAGGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCATC
* * **
35582610 ACCATCCCTTTGCATATTTGATGGTCAAA
1 ACCATCCCTTTTCATATTCGATGGTCATC
* * * *
35582639 ACCATTCTTTTTCATTAATCGATGGTCGTC
1 ACCATCCCTTTTCA-TATTCGATGGTCATC
* * * * *
35582669 ACCGTTCCTTTTCATATTTGATGGTCGTT
1 ACCATCCCTTTTCATATTCGATGGTCATC
* *
35582698 ACCATCCGTTTTCATTAATCGATG
1 ACCATCCCTTTTCA-TATTCGATG
35582722 CTCGTCAATA
Statistics
Matches: 205, Mismatches: 50, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
29 151 0.74
30 54 0.26
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCATC
Found at i:35582727 original size:59 final size:59
Alignment explanation
Indices: 35582435--35582728 Score: 331
Period size: 59 Copynumber: 5.0 Consensus size: 59
35582425 GATGGTTGAA
* * *
35582435 ACCATCCCTTTTCATATTCGATGGTCAAAACCATCCCTTTTCATTAATCGATGGTCATC
1 ACCATCCCTTTTCATATTTGATGGTCATAACCATCCCTTTTCATTAATCGATGGTCGTC
* * * ** ***
35582494 ACCATCCCTTTTCTTATTTGATGGTCATCACCATCCCTTTTCA-TAGTCGATACTCAAA
1 ACCATCCCTTTTCATATTTGATGGTCATAACCATCCCTTTTCATTAATCGATGGTCGTC
* * * * * *
35582552 ACTATCCATTTTCATATTTGATGGTCGTCACCATCCCTTTTCA-TATTCGAGGGTCGTC
1 ACCATCCCTTTTCATATTTGATGGTCATAACCATCCCTTTTCATTAATCGATGGTCGTC
* * * *
35582610 ACCATCCCTTTGCATATTTGATGGTCAAAACCATTCTTTTTCATTAATCGATGGTCGTC
1 ACCATCCCTTTTCATATTTGATGGTCATAACCATCCCTTTTCATTAATCGATGGTCGTC
* * * * * *
35582669 ACCGTTCCTTTTCATATTTGATGGTCGTTACCATCCGTTTTCATTAATCGATGCTCGTC
1 ACCATCCCTTTTCATATTTGATGGTCATAACCATCCCTTTTCATTAATCGATGGTCGTC
35582728 A
1 A
35582729 ATACGTTGTT
Statistics
Matches: 195, Mismatches: 39, Indels: 2
0.83 0.17 0.01
Matches are distributed among these distances:
58 92 0.47
59 103 0.53
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.39
Consensus pattern (59 bp):
ACCATCCCTTTTCATATTTGATGGTCATAACCATCCCTTTTCATTAATCGATGGTCGTC
Found at i:35587936 original size:16 final size:16
Alignment explanation
Indices: 35587886--35587938 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
35587876 TAATACACGA
35587886 AAATTTTTTTATACTTC
1 AAATTTTTTT-TACTTC
** *
35587903 GTA-TTTTTTTAATCTC
1 AAATTTTTTTTACT-TC
35587919 AAATTTTTTTTACTTC
1 AAATTTTTTTTACTTC
35587935 AAAT
1 AAAT
35587939 ATAACAATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
15 3 0.11
16 15 0.54
17 10 0.36
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.58
Consensus pattern (16 bp):
AAATTTTTTTTACTTC
Found at i:35593207 original size:15 final size:15
Alignment explanation
Indices: 35593187--35593225 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
35593177 CAATTTCTTT
35593187 CTCTTTTTCTTTTTC
1 CTCTTTTTCTTTTTC
*
35593202 CTCTTTTTATTTTTC
1 CTCTTTTTCTTTTTC
*
35593217 TTCTTTTTC
1 CTCTTTTTC
35593226 AATCTCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (15 bp):
CTCTTTTTCTTTTTC
Found at i:35593260 original size:27 final size:26
Alignment explanation
Indices: 35593188--35593269 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 26
35593178 AATTTCTTTC
*
35593188 TCTTTTTCTTTTTCCTCTTTTT-A-T
1 TCTTTTTCTTTTTCTTCTTTTTGAGT
35593212 T-TTTCTTCTTTTTCAATCTCTTTTTCGAGT
1 TCTTT-TTCTTTTTC--T-TCTTTTT-GAGT
35593242 TCTTTTTCTTTTTCTTCTTTTTGGAGT
1 TCTTTTTCTTTTTCTTCTTTTT-GAGT
35593269 T
1 T
35593270 TACTACAACT
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
23 3 0.06
24 10 0.21
27 19 0.40
28 1 0.02
29 1 0.02
30 11 0.23
31 3 0.06
ACGTcount: A:0.06, C:0.18, G:0.06, T:0.70
Consensus pattern (26 bp):
TCTTTTTCTTTTTCTTCTTTTTGAGT
Found at i:35599710 original size:43 final size:43
Alignment explanation
Indices: 35599649--35599787 Score: 163
Period size: 43 Copynumber: 3.5 Consensus size: 43
35599639 AGTGATTCAG
35599649 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
* ** *
35599692 GGAATCACCACTTAGCAACAAC---CA-ATT----AAT-CAG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
*
35599725 GGAATTAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
35599768 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
35599788 ACCAATGATT
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
33 18 0.24
34 2 0.03
35 3 0.04
36 2 0.03
37 3 0.04
39 3 0.04
40 2 0.03
41 3 0.04
42 2 0.03
43 38 0.50
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (43 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
Found at i:35599738 original size:76 final size:76
Alignment explanation
Indices: 35599612--35599823 Score: 336
Period size: 76 Copynumber: 2.8 Consensus size: 76
35599602 TATCCGTTAT
* *
35599612 CGGTGGATTCAACACTTAGCAACCACCAGTGATTCAGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAACACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTTCAC
35599677 ATTCAAAAATA
66 ATTCAAAAATA
* * * * *
35599688 CGGTGGAATCACCACTTAGCAACAACCAATTAATCAGGGAATTAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAACACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTTCAC
35599753 ATTCAAAAATA
66 ATTCAAAAATA
*
35599764 CGGTGGAATCAGCACTTAGCAACCACCAATGATTC-GAGGAATCAGCACTTAGCAACCCCT
1 CGGTGGAATCAACACTTAGCAACCACCAATGATTCAG-GGAATCAGCACTTAGCAACCCCT
35599824 GGGGGAATCA
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
75 1 0.01
76 122 0.99
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (76 bp):
CGGTGGAATCAACACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAAAAATA
Found at i:35599810 original size:33 final size:33
Alignment explanation
Indices: 35599768--35599921 Score: 124
Period size: 33 Copynumber: 4.6 Consensus size: 33
35599758 AAAATACGGT
*
35599768 GGAATCAGCACTTAGCAACCACCAATGATTCGA
1 GGAATCAGCACTTAGCAACCACCAATGATTCGG
35599801 GGAATCAGCACTTAGCAACC-CC--TG----GG
1 GGAATCAGCACTTAGCAACCACCAATGATTCGG
* * * *
35599827 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACTGT
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--T--GATTC-GG
*
35599869 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGATTCGG
35599902 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
35599922 CCTTTATATT
Statistics
Matches: 97, Mismatches: 8, Indels: 32
0.71 0.06 0.23
Matches are distributed among these distances:
26 19 0.20
27 2 0.02
28 1 0.01
30 3 0.03
32 2 0.02
33 41 0.42
34 2 0.02
35 1 0.01
36 1 0.01
38 1 0.01
39 2 0.02
41 3 0.03
42 19 0.20
ACGTcount: A:0.34, C:0.29, G:0.19, T:0.19
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGATTCGG
Found at i:35599906 original size:101 final size:102
Alignment explanation
Indices: 35599724--35599924 Score: 341
Period size: 101 Copynumber: 2.0 Consensus size: 102
35599714 CAATTAATCA
* *
35599724 GGGAATTAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAAATACGGTGGAATCAGCACTTAGCAACCA
*
35599789 CCAATGATTCGAGGAATCAGCACTTAGCAACCCCTGG
66 CCAATGAATCGAGGAATCAGCACTTAGCAACCCCTGG
* *
35599826 GGGAATCAGCACTTAGCAACCCCCTTCACATT-TAAAATACTGTGGAATCAGCACTTAGCAACCA
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAAATACGGTGGAATCAGCACTTAGCAACCA
*
35599890 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
66 CCAATGAATCGAGGAATCAGCACTTAGCAACCCCT
35599925 TTATATTCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 63 0.68
102 30 0.32
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.20
Consensus pattern (102 bp):
GGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGAGGAATCAGCACTTAGCAACCCCTGG
Found at i:35600927 original size:17 final size:17
Alignment explanation
Indices: 35600889--35600921 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35600879 GACCTCCAAT
35600889 TTAGAATTTCATAACAA
1 TTAGAATTTCATAACAA
35600906 TTAGACATTTC-TAACA
1 TTAGA-ATTTCATAACA
35600922 TGTAGAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (17 bp):
TTAGAATTTCATAACAA
Found at i:35607214 original size:43 final size:43
Alignment explanation
Indices: 35607153--35607290 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
35607143 AGTGATTCGG
35607153 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
* ** *
35607196 GGAATCAACACTTAGCAACAAC---CA-A-T---GAAT-CGG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
*
35607229 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATATGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
35607272 GGAATCAGCACTTAGCAAC
1 GGAATCAGCACTTAGCAAC
35607291 GACCAATGAT
Statistics
Matches: 76, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
33 19 0.25
34 3 0.04
35 3 0.04
36 2 0.03
37 1 0.01
38 2 0.03
39 1 0.01
40 2 0.03
41 3 0.04
42 2 0.03
43 38 0.50
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (43 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
Found at i:35607242 original size:76 final size:76
Alignment explanation
Indices: 35607116--35607328 Score: 345
Period size: 76 Copynumber: 2.8 Consensus size: 76
35607106 TATCCGTTAT
* * *
35607116 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACAACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
35607181 ATTCAAAAATA
66 ATTCAAAAATA
* *
35607192 CGGTGGAATCAACACTTAGCAACAACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACAACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
35607257 ATTCAAAAATA
66 ATTCAAAAATA
* * * *
35607268 TGGTGGAATCAGCACTTAGCAACGACCAATGATTCGAGGAATCAACACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACAACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
35607329 GGGGGAATCA
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 126 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (76 bp):
CGGTGGAATCAGCACTTAGCAACAACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAAAAATA
Found at i:35607398 original size:102 final size:103
Alignment explanation
Indices: 35607227--35607430 Score: 286
Period size: 102 Copynumber: 2.0 Consensus size: 103
35607217 CCAATGAATC
* ** * *
35607227 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATATGGTGGAATCAGCACTTAGCAACG
1 GGGGAATCAGCACTTAGCAACCCCTTTAACATTCAAAAATACCGTGGAATCAGAACTTAGCAACC
*
35607292 ACCAATGATTCGAGGAATCAACACTTAGCAACCCCTTG
66 ACCAATGAATCGAGGAATCAACACTTAGCAACCCCTTG
* *
35607330 GGGGAATCAGCACTTAGCAACCTCC-TTAACATT-TAAAATACCGTGGAATTAGAACTTAGCAAC
1 GGGGAATCAGCACTTAGCAACC-CCTTTAACATTCAAAAATACCGTGGAATCAGAACTTAGCAAC
* **
35607393 CACCAATGAATCGGGGAATCAGTACTTAGCAACCCCTT
65 CACCAATGAATCGAGGAATCAACACTTAGCAACCCCTT
35607431 TATATTCAAT
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
102 58 0.65
103 29 0.33
104 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCTTTAACATTCAAAAATACCGTGGAATCAGAACTTAGCAACC
ACCAATGAATCGAGGAATCAACACTTAGCAACCCCTTG
Found at i:35609502 original size:26 final size:26
Alignment explanation
Indices: 35609473--35609526 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
35609463 ATGACCGCAA
* *
35609473 TGCCTCTAAAGGGTAAATGACTATTT
1 TGCCCCTAAAGGGTAAATGACTAATT
** *
35609499 TGCCCCTTGAGTGTAAATGACTAATT
1 TGCCCCTAAAGGGTAAATGACTAATT
35609525 TG
1 TG
35609527 TCTGTGATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (26 bp):
TGCCCCTAAAGGGTAAATGACTAATT
Found at i:35609764 original size:32 final size:32
Alignment explanation
Indices: 35609723--35609798 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
35609713 GCGATGCTAC
*** *
35609723 TGATGGCTTTGTATTGGTCCTAGTACCGTTAT
1 TGATGGCTTTGTACCAGTCATAGTACCGTTAT
35609755 TGATGGCTTTGTACCAGTCATAGTACCGTTAT
1 TGATGGCTTTGTACCAGTCATAGTACCGTTAT
35609787 TGATGGCTTTGT
1 TGATGGCTTTGT
35609799 GCCGATCATG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.17, C:0.16, G:0.25, T:0.42
Consensus pattern (32 bp):
TGATGGCTTTGTACCAGTCATAGTACCGTTAT
Found at i:35609824 original size:32 final size:32
Alignment explanation
Indices: 35609743--35609934 Score: 160
Period size: 32 Copynumber: 6.0 Consensus size: 32
35609733 GTATTGGTCC
*
35609743 TAGTACCGTTATTGATGGCTTTGTACC-AGTCA
1 TAGTACCGTTATTGATGGCTTTGTGCCGA-TCA
35609775 TAGTACCGTTATTGATGGCTTTGTGCCGATCA
1 TAGTACCGTTATTGATGGCTTTGTGCCGATCA
* * *
35609807 T-GTTACCATTATCGATGGCTATGTGCCGATCA
1 TAG-TACCGTTATTGATGGCTTTGTGCCGATCA
* * * *
35609839 TA-TCACCGTTACTAAGGGCTATGTGCCGATCA
1 TAGT-ACCGTTATTGATGGCTTTGTGCCGATCA
* * ** * *
35609871 TA-TCACTGCTACAGATGGCTTTGAGGCGATCA
1 TAGT-ACCGTTATTGATGGCTTTGTGCCGATCA
* *
35609903 T-GCTACCGTTACTGATGGCTTTGTGCTGATCA
1 TAG-TACCGTTATTGATGGCTTTGTGCCGATCA
35609935 CATTACTGAA
Statistics
Matches: 131, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
31 2 0.02
32 127 0.97
33 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (32 bp):
TAGTACCGTTATTGATGGCTTTGTGCCGATCA
Done.